dan_957

##################################################--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- GGGCGACAACAAGGACTCGCTCCTCGACCCGGAGCGCCCCAGTTCGTCGGGTAAGAGTTCTCACAGCGATAGTGCTACAGGGACAAGCGACAAGAGTCAAGCGAAAGCCAACGGATCCAACAACGAGCTGGAATCCGCAGCCGCATCCGCATCCGAATCCTCATCCAAATCCAAAGCCAATCCATCGCCGGGCAATGGCAGTGATGTTGATGCTACCCAGCAGGACGCATCATCAGAGAAGGCAACCGAAT *************************************************************....((...........((....(((((....)))..)).....))......))************************************************************************************************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M058 embryo	M044 female body	V105 male body	V055 head	V039 embryo
...............................................................CAGCGATAGTGCTACAGGGACA......................................................................................................................................................................	22	0	1	1.00	1	1	0	0	0	0
..............................GGAGCGCCCCAGTTCGTCGGGTAA.....................................................................................................................................................................................................	24	0	1	1.00	1	0	1	0	0	0
....GACAACAAGGACTCGCTCCTC..................................................................................................................................................................................................................................	21	0	1	1.00	1	0	1	0	0	0
............GTACTCGCTTCTCGACCCGGAGC........................................................................................................................................................................................................................	23	2	1	1.00	1	1	0	0	0	0
..............................................................................AGGGACAAGCGACAAGAGT..........................................................................................................................................................	19	0	1	1.00	1	1	0	0	0	0
....GACAACAAGGACTCGCTC.....................................................................................................................................................................................................................................	18	0	1	1.00	1	1	0	0	0	0
.................................................................................................CAAGCGAAAGCCAACGGATC......................................................................................................................................	20	0	1	1.00	1	1	0	0	0	0
..............................................................................................................................................................................AGCCAATCCATCGCCGGGCAATGGC....................................................	25	0	1	1.00	1	1	0	0	0	0
..............................................................................................................................................................................ATCCAATCCATCGCCGGGCAATGGCA...................................................	26	1	1	1.00	1	1	0	0	0	0
..............................................................ACAGCGATAGTGCTACAGGG.........................................................................................................................................................................	20	0	1	1.00	1	0	0	1	0	0
.............................................................................................................................................................................AAGCCAATCCATCGCCGGGCAATGGCA...................................................	27	0	1	1.00	1	0	1	0	0	0
......................................................................AGTGCTACAGGGACAAGC...................................................................................................................................................................	18	0	1	1.00	1	1	0	0	0	0
.................................GACCGCCAGTTCGTCGGGTA......................................................................................................................................................................................................	20	3	4	0.25	1	0	0	0	1	0
.......................................................................................................AAAGCCCACGGATCCCACCA................................................................................................................................	20	3	8	0.13	1	0	0	0	0	1
................................................................................................................................................................................................................GATGATAACCAGAAGGACGC.......................	20	3	11	0.09	1	0	0	0	1	0

CCCGCTGTTGTTCCTGAGCGAGGAGCTGGGCCTCGCGGGGTCAAGCAGCCCATTCTCAAGAGTGTCGCTATCACGATGTCCCTGTTCGCTGTTCTCAGTTCGCTTTCGGTTGCCTAGGTTGTTGCTCGACCTTAGGCGTCGGCGTAGGCGTAGGCTTAGGAGTAGGTTTAGGTTTCGGTTAGGTAGCGGCCCGTTACCGTCACTACAACTACGATGGGTCGTCCTGCGTAGTAGTCTCTTCCGTTGGCTTA ************************************************************************************************************************************....((...........((....(((((....)))..)).....))......))*************************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M044 female body	V055 head	V105 male body	V039 embryo
.........GTTCCTGAGTGATGGGCTGGG.............................................................................................................................................................................................................................	21	3	1	1.00	1	1	0	0	0
............CCCGAGCGAGGAGATGGG.............................................................................................................................................................................................................................	18	2	2	0.50	1	0	1	0	0
...................................................................................................................................................................AGGTTTAGGTCGCGGTTAG.....................................................................	19	2	3	0.33	1	0	0	0	1
...............GAGCGATGGGCTGGGCATC.........................................................................................................................................................................................................................	19	3	4	0.25	1	0	0	1	0
......................................................................................................................................................................................................GTCACTACAAGTACGAAAGGT................................	21	3	5	0.20	1	1	0	0	0
..........TTCCGGAGTGAGGGGCTGGG.............................................................................................................................................................................................................................	20	3	6	0.17	1	1	0	0	0
..........TTCCTGAGTGATGGGCTGGG.............................................................................................................................................................................................................................	20	3	6	0.17	1	1	0	0	0
......................AAGTTGGGCCTAGCGGGGTC.................................................................................................................................................................................................................	20	3	7	0.14	1	0	0	1	0
.......................AGCTGGGCCTTGTGGGGGCA................................................................................................................................................................................................................	20	3	7	0.14	1	0	1	0	0
................................................................................................................................................TAGGGGTGGGCTTGGGAGTAG......................................................................................	21	3	10	0.10	1	0	1	0	0
..............................................................................................................................................................................TCGGTTAGGAAGCGGGC............................................................	17	2	20	0.05	1	0	1	0	0
...........................................................CAGTGTTGCTCTCACGAT..............................................................................................................................................................................	18	3	20	0.05	1	0	1	0	0

Species	Coordinate	ID	Alignment
droAna3	scaffold_12943:4162613-4162863 +	dan_957	GGGCGAC---AACAAGGACTCGCT------CCTCGACCCGGAGCGCCCCAGTTCGTCGGGTAAGAGTTCTCACAG-------------CGATAGTGCTACAGGG---ACAAGCGAC--------------------------------------AAGAGTCAA---------GCGAAAGCCAACGGATCCAACAACGAGCT---GGAATCCGCA------GCCGC---------ATCCGCA------------TCCGAATC--------CTCATCCAAATCCAAAGCCA------------------------------------ATCCATCGCCG---GGCAATGGCAGTGAT---GTTGATGC---------------------------TACCCAGCAGGACGCAT---------CATCAGAGAAGGCAAC------CGAAT
droBip1	scf7180000395973:386620-386846 +		GGGCGAC---AACAAGGACTCGCT------CCTCGACCCGGAGCGCCCCAGTTCGTCGGGTAAGAGTTCCAACAG-------------CGAATGTGCAACCAAC------AGCGAC--------------------------------------AAAAATCAA---------CCCAAAGC------------------------TGGATC-CAACGAGATGCTGC------------C--A------------TCCGAATC--------CTCATCCAAATCCAAAGCCA------------------------------------ATCCATCGCCG---GGCAATGGCAGTGAT---GTTGATGC---------------------------CTCCCAGCAGGACGCAT---------CATCAGACAAAGCTCC------AGAAT
droKik1	scf7180000302401:536835-537115 -		CGGCGATAGCAACAAGGACTCGCTGCTCCTCCTTGACCCGGAGCGGCCAAGTTCGTCGGGTAAGAGCG---GCG----------------------GCATCGGCGACGGCAACGACGCAAAAACGCTAACGAAGGC---CAA--------------------------------------------------CG---AGCTGGAGGAATGCGAAAAAGAAACCGCAGCAAATGCTTCCGAA------------TCCGAATC--------CTCATCCAAATCCAAAGCC------------------------------------GATCCCTTGCCG---GACCATGGTAGCGATAATGTCGATAATG------------CGGCAACGTTGGCCGCCCAGCAGGAGGCAT---------CATCAGCA---ACTCCTCCACCACAAT
droFic1	scf7180000453904:494564-494838 -		GGGCGAC---AACAAGGACTCGCT------CCTCGACCCGGAGCGCCCCAGTTCGTCGGGTAAGAGCA---ACAG-------------CGAAGGTGTCAACGGC---GCCAACGGC--------------------------------------AAAC--------------C-------------------------------GGAATGCGAGAAAGAGGCCAC---------GACCGCTTGCGAATCAGAATCCGAATC--------CTCATCCAAATCCACAGCCACCGCCACCGCCACAGCTGAAGCTGAAGCCGACGCCGACGCCTTGCCGGGCGGCAAGGGCAGCGAT---GTCGAGGC---------------------GGCGGTCGCCCAGCAGGACGCAT---------CATCAGCA---GCTCC------CGAAT
droEle1	scf7180000490454:143933-144168 +		TGGCGAA---AACAAGGACTCGCT------CCTCGACCAGGAGCGCCCCAGTTCGTCGGGTAAGAGCA---GCAG-------------CAAAAGTGGCAGCGGC---GGCAACGAC--------------------------------------AAAA--------------C-------------------------------GGAATGCGAAAAAGATGCCACC---AATGCAACCGCT------------TCCGAATC--------CTCATCCAAATCCAAAGCCA------------------------------GTGCTGATGCCTTACCG---GGCACTGGCAGCGAT---GTCGATGT---------------------GGCGGTCGCCCAGCAGGATGCAT---------CATCAGTG---ACTCC------AGAAT
droRho1	scf7180000779252:257125-257354 -		GGGCGAA---AACAAGGATTTGCT------TCTCGACCCGGAGCGCCCCAGTTCGTCGGGTAAGAGCA---GCAG-------------CGAAAGTGGCAGCAGC---GGCAACGAC--------------------------------------AAAA--------------C-------------------------------GGAATGCGAAAAAGATGCCAC---------AACCGCT------------TCTGAATC--------CTCATCCAAATCCAAAGCCA------------------------------AAGCTGATGCCTTACCG---GGCAGTGGCAGCGAT---GTTGATGT---------------------GGCGGTCGCCCAGCAGGGTGCAT---------CATCAGCG---ACTCC------AGAAT
droBia1	scf7180000301547:29522-29739 +		GGGCGAC---AATAAGGACTCGCT------TCTCGACCCGGAGCGCCCCAGTTCGTCGGGTAAGACCA---GCAG-------------CGAAAGCGGCAGCGGC---GCCAACGAC--------------------------------------AAAA--------------C-------------------------------GGAACGCGAAAAAGATGCCTC---------AACCGTT------------TCCGAATC--------CTCATCCAAATCCGAAG------------------------------------------CTTTGCCG---GGCAAGGGCAGCGAT---GTCGATGA---------------------GGCGGTCGCCCAGCAGGACGCAT---------TATCACCA---ACTCC------AGAAT
droTak1	scf7180000413017:308459-308685 +		GGGCGAC---AACAAGGACTCGCT------TCTCGACCCGGAGCGCCCCAGTTCGTCGGGTAAGACCA---GCAG-------------CGAAAATGGCAGCGCC---GGCAGCGAG--------------------------------------AAAA--------------C-------------------------------GGAATGCGAAAAAGAGGCCACGACCACCGTTTCCGAA------------ACCGAATC--------CTCATCCAAATCCGACG------------------------------------------CCTTGCCG---GGCAAGGGCAGCGAT---GTCGATGT---------------------GGCGGTCGCCCAGCAGGATGCAC---------CATCAGCA---ACTCC------AGAAT
droEug1	scf7180000409461:589222-589439 +		GGGCGAC---AACAAGGACTCGCT------TCTTGACCCGGAGCGCCCCAGTTCGTCGGGTAAGAGCA---GCAG-------------CAAAAGTGGCATCAGC---GGCAACGAC--------------------------------------AAAA--------------C-------------------------------GGAATGCGAAAAAGATGCCAC---------AACCGTT------------TCCGAATC--------CTCATCCAACTCCGAAG------------------------------------------CTGTGCCG---GGCAAGGGTAGCGAA---GTCAATGT---------------------GGTGGACGCCCAGCAGGACGCAC---------TATCAGCA---ACTCC------AGAAT
dm3	chr2L:227965-228182 -		GGGCGAT---AACAAGGACTCGCT------TCTCGACCCGGAGCGTCCCAGTTCGTCTGGTAAGAGTA---GCAG-------------TGAAAATGCTAGCGGC---GGCAACGAC--------------------------------------AAAA--------------C-------------------------------GGAAAGCGAAAATGATGCCAC---------AACCGTT------------TCCGAATC--------CTCATACAAATCCGAAG------------------------------------------TCTTGCCG---GGCAAAGGCAGCGAT---CTGGATGT---------------------GTCGGTCGCCCAGCAGGACGCAT---------TATCAGCA---ACTCC------TGAAT
droSim2	2l:214159-214376 -	dsi_9682	GGGCGAT---AACAAGGACTCGCT------TCTCGACCCGGAGCGTCCTAGTTCGTCTGGTAAGAGCA---GCAG-------------TGAAAATGGTAGCGGC---GGAAACGAC--------------------------------------AAAA--------------C-------------------------------GGAAAGCGAAAATGATGCCAC---------AACCGTT------------TCCGAATC--------CTCATCCAAATCCGAAG------------------------------------------TCTTGCCG---GGCAAAGGCAGCGAT---CTCGATGT---------------------GTCGGTCGCCCAGCAGGACGCAT---------TATCAGCA---ACTCT------TGAAT
droSec2	scaffold_14:225901-226118 -		GGGCGAT---AACAAGGACTCGCT------TCTCGACCCGGAGCGTCCTAGTTCGTCTGGTAAGAGCA---GCAG-------------TGAAAATGGTAGCGGC---GGAAACGAC--------------------------------------AAAA--------------C-------------------------------GGAAAGCGAAAATGATGCCAC---------AACCGTT------------TCCGAATC--------CTCATCCAAATCCGAAG------------------------------------------TCTTGCCG---GGCAAAGGCAGCGAT---CTCGATGT---------------------GTCGGTCGCCCAGCAGGACGCAT---------TATCAGCA---ACTCT------TGAAT
droYak3	2L:220929-221146 -		GGGCGAT---AACAAGGACTCGCT------TCTCGACCCGGAGCGCCCCAGTTCGTCTGGTAAGAGCA---GCAG-------------TGAAAATGGCAACGGC---GGCAACGAC--------------------------------------AAAA--------------C-------------------------------GGAAAGCGAAAAAGATGCTAC---------ATCCGTT------------ACCGAATC--------CTCATCCAAATCCGAAG------------------------------------------TCTTGCCG---GGCAAGGGCAGCGAT---CTCGATGT---------------------GCCGGTCGCCCAGCAGAACGCAT---------CATCAGCA---ACTCC------TAAAT
droEre2	scaffold_4929:274175-274392 -		GGGCGAT---AACAAGGACTCGCT------TCTCGACCCGGAGCGTCCCAGTTCGTCTGGTAAGAGCA---GCAG-------------TGAAAATGGCAGCGGC---GGCAACGAC--------------------------------------AAAA--------------C-------------------------------GGAAAGCGAAAAAGATGCCAC---------ATCCGTT------------ACCGAATC--------CTCATCCAAATCCGAAG------------------------------------------TCTTGCCG---GGCAAAGGCAGCGAT---CTCGATGA---------------------GCCGGTCGCCCAGCAGGACGCAT---------CATCAGCA---ACTCC------TGAAT
dp5	4_group1:4379969-4380210 +	dps_1416	TGGCGAC---AACAAGGACTCGC---------TCGATCCGGAGCGTCCCAGTTCGTCGGGTAAGACCATCAGCAG-------------CACAAGCAGCAGCGGCGATGGAAACGGCACCGAAGCGGCCACCAAAGC---TAAAGCTAAAGCGAA--TGCTAATGCTA---------------------------------------------------ATGCCAG---------CAGCGAC------------CTGGAATCGTCGTCGTCTG-----CCCCGA---------------------------------------------------CTGAGGGCAATGGCAGCGCC---GTCGAGGC---------------------GACCGCCGATCAGCAG---CCAG---------CTGAAGCA---CTCCC------AGAAT
droPer2	scaffold_5:830042-830283 -		TGGCGAC---AACAAGGACTCGC---------TCGATCCGGAGCGTCCCAGTTCGTCGGGTAAGACCATCAGCAG-------------CACAAGCAGCAGCGGCGATGGAAACGGCACCGAAGCGGCCACCAAAGC---TAAAGCTAAAGCGAA--TGCTAATGCTA---------------------------------------------------ATGCCAG---------CAGCGAC------------CTGGAATCGTCGTCGTCTG-----CCCCGA---------------------------------------------------CTGAGGGCAATGGCAGCGCC---GTCGAGGC---------------------GACCGCCGATCAGCAG---CCAG---------CTGAAGCA---CTCCC------AGAAT
droWil2	scf2_1100000004577:113231-113436 -		TGGCGAT---AATAAGGACTCGC---------TTGATCCGGAGCGTCCCAGTTCGTCGGGTAAGAAGA---AGAC---CGAA-ATCGTCGAAAGCGGAACTGGC---GGCA----C-----------------------AAAAGCTAATAATAA--TAATAAT---------AAAA------------------------------------------AAGCCAA---------TGAGGAC------------CTGAGCTCGTC-----------------GA---------------------------------------------------CTGTGGGCAATGGCAGCGCC---GTCGAGGC---------------------TG---------------GTGCATCAGTTGGCAATGAAGCT---CTCGC------CGAAT
droMoj3	scaffold_6500:2456869-2456946 -		TGGCGAC---AACAAGGACTCAC---------TAGATCCAGAGCGTCCCAGTTCGTCGGGTAAGAGCG---A----------------TAAGTGCGATAACAGC---GATAA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droGri2	scaffold_15252:12915416-12915696 -		CGGCGAT---AATAAGGACTCGC---------TCGATCCGGAGCGTCCCAGTTCGTCGGGTAAGAGCG---ATAAGGCCGAAAA----TCATAATAATAGCAGC---GGAATCAATT------CTACTACTACTACTACTACTACTACTACTAC--TACCAATACCAATACCAATAAAGCCAA---------CG---AGC------------------------A---------ATCCGT---------------CAACTA--------CTCCTCCAACTCGGTCG------------------------------------------------AG---GGCAATGGCAGCGATGCAGTCGACGTTGACGTTGACGCCACGGCGGCTGCGGCAGCCGTGCCAAACGAAT---------CGGCAACAAAATCAAC------CAAAT

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droAna3

GGGCGAC---AACAAGGACTCGCT------CCTCGACCCGGAGCGCCCCAGTTCGTCGGGTAAGAGTTCTCACAG-------------CGATAGTGCTACAGGG---ACAAGCGAC--------------------------------------AAGAGTCAA---------GCGAAAGCCAACGGATCCAACAACGAGCT---GGAATCCGCA------GCCGC---------ATCCGCA------------TCCGAATC--------CTCATCCAAATCCAAAGCCA------------------------------------ATCCATCGCCG---GGCAATGGCAGTGAT---GTTGATGC---------------------------TACCCAGCAGGACGCAT---------CATCAGAGAAGGCAAC------CGAAT	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
........................................................................CAG-------------CGATAGTGCTACAGGG---ACA...............................................................................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	1	0	0	0	0
.......................................GGAGCGCCCCAGTTCGTCGGGTAA..............................................................................................................................................................................................................................................................................................................................................................................................	24	1	1.00	1	1	0	0	0	0	0
....GAC---AACAAGGACTCGCT------CCTC...........................................................................................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	1	0	0	0	0	0
....................................................................................................AGGG---ACAAGCGAC--------------------------------------AAGAGT.............................................................................................................................................................................................................................................................................................	19	1	1.00	1	0	1	0	0	0	0
....GAC---AACAAGGACTCGCT------C..............................................................................................................................................................................................................................................................................................................................................................................................................................	18	1	1.00	1	0	1	0	0	0	0
................................................................................................................................................................CAA---------GCGAAAGCCAACGGATC................................................................................................................................................................................................................................................................	20	1	1.00	1	0	1	0	0	0	0
............................................................................................................................................................................................................................................................................................AGCCA------------------------------------ATCCATCGCCG---GGCAATGGC.................................................................................................	25	1	1.00	1	0	1	0	0	0	0
.......................................................................ACAG-------------CGATAGTGCTACAGGG---..................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	1	0
...........................................................................................................................................................................................................................................................................................AAGCCA------------------------------------ATCCATCGCCG---GGCAATGGCA................................................................................................	27	1	1.00	1	1	0	0	0	0	0
............................................................................................AGTGCTACAGGG---ACAAGC............................................................................................................................................................................................................................................................................................................................................	18	1	1.00	1	0	1	0	0	0	0

droBip1

GGGCGAC---AACAAGGACTCGCT------CCTCGACCCGGAGCGCCCCAGTTCGTCGGGTAAGAGTTCCAACAG-------------CGAATGTGCAACCAAC------AGCGAC--------------------------------------AAAAATCAA---------CCCAAAGC------------------------TGGATC-CAACGAGATGCTGC------------C--A------------TCCGAATC--------CTCATCCAAATCCAAAGCCA------------------------------------ATCCATCGCCG---GGCAATGGCAGTGAT---GTTGATGC---------------------------CTCCCAGCAGGACGCAT---------CATCAGACAAAGCTCC------AGAAT	Size	Hit Count	Total Norm	Total
No Reads

droKik1

CGGCGATAGCAACAAGGACTCGCTGCTCCTCCTTGACCCGGAGCGGCCAAGTTCGTCGGGTAAGAGCG---GCG----------------------GCATCGGCGACGGCAACGACGCAAAAACGCTAACGAAGGC---CAA--------------------------------------------------CG---AGCTGGAGGAATGCGAAAAAGAAACCGCAGCAAATGCTTCCGAA------------TCCGAATC--------CTCATCCAAATCCAAAGCC------------------------------------GATCCCTTGCCG---GACCATGGTAGCGATAATGTCGATAATG------------CGGCAACGTTGGCCGCCCAGCAGGAGGCAT---------CATCAGCA---ACTCCTCCACCACAAT	Size	Hit Count	Total Norm	Total
No Reads

droFic1

GGGCGAC---AACAAGGACTCGCT------CCTCGACCCGGAGCGCCCCAGTTCGTCGGGTAAGAGCA---ACAG-------------CGAAGGTGTCAACGGC---GCCAACGGC--------------------------------------AAAC--------------C-------------------------------GGAATGCGAGAAAGAGGCCAC---------GACCGCTTGCGAATCAGAATCCGAATC--------CTCATCCAAATCCACAGCCACCGCCACCGCCACAGCTGAAGCTGAAGCCGACGCCGACGCCTTGCCGGGCGGCAAGGGCAGCGAT---GTCGAGGC---------------------GGCGGTCGCCCAGCAGGACGCAT---------CATCAGCA---GCTCC------CGAAT	Size	Hit Count	Total Norm	Total
No Reads

droEle1

TGGCGAA---AACAAGGACTCGCT------CCTCGACCAGGAGCGCCCCAGTTCGTCGGGTAAGAGCA---GCAG-------------CAAAAGTGGCAGCGGC---GGCAACGAC--------------------------------------AAAA--------------C-------------------------------GGAATGCGAAAAAGATGCCACC---AATGCAACCGCT------------TCCGAATC--------CTCATCCAAATCCAAAGCCA------------------------------GTGCTGATGCCTTACCG---GGCACTGGCAGCGAT---GTCGATGT---------------------GGCGGTCGCCCAGCAGGATGCAT---------CATCAGTG---ACTCC------AGAAT	Size	Hit Count	Total Norm	Total
No Reads

droRho1

GGGCGAA---AACAAGGATTTGCT------TCTCGACCCGGAGCGCCCCAGTTCGTCGGGTAAGAGCA---GCAG-------------CGAAAGTGGCAGCAGC---GGCAACGAC--------------------------------------AAAA--------------C-------------------------------GGAATGCGAAAAAGATGCCAC---------AACCGCT------------TCTGAATC--------CTCATCCAAATCCAAAGCCA------------------------------AAGCTGATGCCTTACCG---GGCAGTGGCAGCGAT---GTTGATGT---------------------GGCGGTCGCCCAGCAGGGTGCAT---------CATCAGCG---ACTCC------AGAAT	Size	Hit Count	Total Norm	Total
No Reads

droBia1

GGGCGAC---AATAAGGACTCGCT------TCTCGACCCGGAGCGCCCCAGTTCGTCGGGTAAGACCA---GCAG-------------CGAAAGCGGCAGCGGC---GCCAACGAC--------------------------------------AAAA--------------C-------------------------------GGAACGCGAAAAAGATGCCTC---------AACCGTT------------TCCGAATC--------CTCATCCAAATCCGAAG------------------------------------------CTTTGCCG---GGCAAGGGCAGCGAT---GTCGATGA---------------------GGCGGTCGCCCAGCAGGACGCAT---------TATCACCA---ACTCC------AGAAT	Size	Hit Count	Total Norm	Total
No Reads

droTak1

GGGCGAC---AACAAGGACTCGCT------TCTCGACCCGGAGCGCCCCAGTTCGTCGGGTAAGACCA---GCAG-------------CGAAAATGGCAGCGCC---GGCAGCGAG--------------------------------------AAAA--------------C-------------------------------GGAATGCGAAAAAGAGGCCACGACCACCGTTTCCGAA------------ACCGAATC--------CTCATCCAAATCCGACG------------------------------------------CCTTGCCG---GGCAAGGGCAGCGAT---GTCGATGT---------------------GGCGGTCGCCCAGCAGGATGCAC---------CATCAGCA---ACTCC------AGAAT	Size	Hit Count	Total Norm	Total
No Reads

droEug1

GGGCGAC---AACAAGGACTCGCT------TCTTGACCCGGAGCGCCCCAGTTCGTCGGGTAAGAGCA---GCAG-------------CAAAAGTGGCATCAGC---GGCAACGAC--------------------------------------AAAA--------------C-------------------------------GGAATGCGAAAAAGATGCCAC---------AACCGTT------------TCCGAATC--------CTCATCCAACTCCGAAG------------------------------------------CTGTGCCG---GGCAAGGGTAGCGAA---GTCAATGT---------------------GGTGGACGCCCAGCAGGACGCAC---------TATCAGCA---ACTCC------AGAAT	Size	Hit Count	Total Norm	Total
No Reads

dm3

GGGCGAT---AACAAGGACTCGCT------TCTCGACCCGGAGCGTCCCAGTTCGTCTGGTAAGAGTA---GCAG-------------TGAAAATGCTAGCGGC---GGCAACGAC--------------------------------------AAAA--------------C-------------------------------GGAAAGCGAAAATGATGCCAC---------AACCGTT------------TCCGAATC--------CTCATACAAATCCGAAG------------------------------------------TCTTGCCG---GGCAAAGGCAGCGAT---CTGGATGT---------------------GTCGGTCGCCCAGCAGGACGCAT---------TATCAGCA---ACTCC------TGAAT	Size	Hit Count	Total Norm	Total	GSM154618 Ovary	GSM154620 Ovary	GSM154621 Ovary	GSM154622 Ovary	GSM180328 Head	GSM180329 Mixed-body	GSM180330 Embryo	GSM180331 Embryo	GSM180332 Embryo	GSM180333 Embryo	GSM180334 Larvae	GSM180335 Disc	GSM180336 Pupae	GSM180337 S2	GSM231091 Ovary	GSM239041 Head	GSM239050 Head	GSM239051 S2	GSM239052 S2	GSM246084 Head	GSM266765 S2	GSM280082 Ovary	GSM280083 Ovary	GSM280084 Ovary	GSM280085 Testis	GSM280086 Ovary	GSM280087 S2-NP	GSM280088 S2-NP	GSM312995 Head	GSM313160 Head	GSM313161 Head	GSM313162 Head	GSM313163 Head	GSM313164 Head	GSM313165 Head	GSM343287 Embryo	GSM379050 Ovary	GSM379051 Ovary	GSM379052 Ovary	GSM379053 Ovary	GSM379054 Ovary	GSM379055 Ovary	GSM379056 Ovary	GSM379057 Ovary	GSM379058 Ovary	GSM379059 Ovary	GSM379060 Ovary	GSM379061 Ovary	GSM379062 Ovary	GSM379063 Ovary	GSM379064 Ovary	GSM379065 Ovary	GSM379066 Ovary	GSM379067 Ovary	GSM424739 S2	GSM424740 S2	GSM424741 S2	GSM467729 Female-body	GSM467730 Female-body	GSM467731 Female-body	M002 CS	M003 Male-body	M004 Male-body	M005 ML-DmD32	M006 ML-DmD32	M029 OSC	M030 OSC	M031 OSC	M032 S2-R+	M033 S2-R+	M034 S2-R+	M035 S2-R+	M036 S2-R+	M037 S2-R+	M038 S2-R+	M039 S2-R+	M048 S2-R+	OSS2 OSS	OSS6 OSS	OSS7 OSS	OSS8 OSS	S1 Head	S10 Embryo	S11 Embryo	S12 Embryo	S13 Embryo	S14 Embryo	S15 S2-GMR	S16 Kc	S17 Larvae	S18 Larvae	S19 Pupae	S2 Head	S20 Pupae	S21 Disc	S22 Head	S23 Female-body	S24 Male-body	S25 Larvae	S26 Larvae	S27 Pupae	S28 Pupae	S29 Head	S3 Male-body	S30 S2-GMR	S31 S2	S32 S2	S33 Kc	S34 Kc	S35 Kc	S4 Female-body	S5 Disc	S6 Embryo	S7 Embryo	S8 S2	S9 Embryo	SRR001337 Head	SRR001338 Head	SRR001339 Head	SRR001340 Head	SRR001341 Head	SRR001342 Head	SRR001343 Head	SRR001344 Head	SRR001345 Head	SRR001346 Head	SRR001347 Head	SRR001348 Head	SRR001349 Head	SRR001664 Head	SRR010951 Ovary	SRR010952 Ovary	SRR010953 Ovary	SRR010954 Ovary	SRR010955 Ovary	SRR010956 Ovary	SRR010957 Ovary	SRR010958 Ovary	SRR010959 Ovary	SRR010960 Ovary	SRR014268 Embryo	SRR014269 Embryo	SRR014270 Embryo	SRR014271 Embryo	SRR014272 Embryo	SRR014273 Ovary	SRR014274 Ovary	SRR014275 Ovary	SRR014276 Ovary	SRR014277 Ovary	SRR014278 Ovary	SRR014279 Ovary	SRR014280 Ovary	SRR014281 Ovary	SRR014282 Ovary	SRR023197 S2	SRR023399 S2	SRR023400 S2	SRR023402 S2	SRR023407 S2	SRR029028 S2	SRR029029 S2	SRR029030 S2	SRR029031 S2	SRR029032 S2	SRR029033 S2	SRR029608 Head	SRR029633 Head	SRR030145 gb3	SRR031692 Head	SRR031693 Head	SRR031694 Head	SRR031696 Head	SRR031697 Head	SRR031698 Head	SRR031699 Head	SRR031700 Head	SRR031701 Head	SRR031702 Head	SRR031703 Head	SRR031704 Head	SRR032092 S2	SRR032093 S2	SRR032094 S2	SRR032095 S2-NP	SRR032096 S2-NP	SRR032152 Head	SRR060643 Testis	SRR060644 Ovary	SRR060645 Testis	SRR060646 Ovary	SRR060647 Ovary	SRR060648 Ovary	SRR060649 Ovary	SRR060650 Testis	SRR060651 Ovary	SRR060652 Testis	SRR060653 Ovary	SRR065151 Ovary	SRR065152 Ovary	SRR065153 Ovary	SRR065154 Ovary	SRR065155 Ovary	SRR065800 Ovary	SRR065801 Ovary	SRR065802 Ovary	SRR065803 Ovary	SRR065804 Ovary	SRR065805 Ovary	SRR065806 Ovary	SRR065807 Ovary	SRR097865 S2-NP	SRR097866 S2-NP	SRR097867 S2-NP	SRR298536 Ovary	SRR298537 Ovary	SRR298711 Ovary	SRR298712 Ovary	SRR317110 Ovary	SRR317111 Ovary	SRR317112 Ovary	SRR317113 Ovary	SRR317114 Ovary	SRR317115 Ovary	SRR317116 Ovary	SRR317117 Ovary	SRR341115 S2	SRR341116 S2	SRR341117 S2	SRR341118 S2	SRR351332 Mixed-body	SRR351333 Mixed-body	T004 OSC	T005 CME-L1	V001 Embryo	V002 Embryo	V003 S2	V006 Female-body	V007 Head	V008 S2	V009 CME-L1	V010 ML-DmD20-C5	V011 Sg4	V012 Male-body	V013 Head	V014 DTT	V015 DreRFHV	V018 Kc167	V019 GM2	V020 S2-R+	V021 ML-DmD21	V022 ML-DmD32	V023 Head	V024 Kc167	V025 S2-R+	V026 1182-2H	V027 ML-DmD21	V028 CME-W1-Cl.8+	V029 ML-DmD9	V030 ML-DmD8	V031 GM2	V032 S1	V033 CME-W1-Cl.8+	V034 ML-DmD16-C3	V035 ML-DmD32	V036 ML-DmD20-C5	V037 S2	V038 S2	V063 Ovary	V0632 Ovary	V064 Ovary	V0642 Ovary	V065 Ovary	V0652 Ovary	V066 Ovary	V0662 Ovary	V067 S2-NP	V073 mbn2	V074 S3	V075 ML-DmBG1-C1	V076 ML-DmBG3-C2	V077 Head	V078 Head	V079 Head	V080 Head	V081 Embryo	V082 Embryo	V083 Male-body	V084 Female-body	V085 CME-W2	V086 Female-body	V088 Ovary	V0882 Ovary	V089 Ovary	V0892 Ovary	V090 Male-body	V091 fGS/OSS	V092 Male-body	V093 Male-body	V094 S2-R+	V095 S2-R+	V096 Ovary	V097 Ovary	V098 Ovary	V125 ML-DmD9	V126 CME-L1	V127 G2	V128 S3	V129 ML-DmBG1-C1	V130 ML-DmBG3-C2	V131 ML-DmD16-C3	V132 ML-DmD32	V133 Sg4	V134 ML-DmD8	V135 CME-W2	V136 Male-body	V137 Head	V138 Male-body	V139 Female-body	V140 Female-body	V141 Female-body	V142 Female-body	V144 OSC	V145 S2	V146 S1	V147 1182-2H	V148 mbn2	GSM1528798 follicle cells
...........................................................................................................................................................................................................................................................................................................................................................CAGCGAT---CTGGATGT---------------------GTCG.......................................................	19	1	6.00	6	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................................................................TGT---------------------GTCGGTCGCCCAGCAGG..........................................	20	1	6.00	6	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	5	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................................................................TGT---------------------GTCGGTCGCCCAGCAGGACG.......................................	23	1	6.00	6	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	4	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................TCCGAAG------------------------------------------TCTTGCCG---GGCAAAGGCAGC..............................................................................................	27	1	4.00	4	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	2	0	0	0	0	0
..............................................................................................................................................................................................................................................................................TCATACAAATCCGAAG------------------------------------------TCTTGCCG---GGCAAA....................................................................................................	30	1	4.00	4	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	4	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................................................................................................................................................GGCAAAGGCAGCGAT---CTGGATGT---------------------GT.........................................................	25	1	3.00	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.......................................................TCTGGTAAGAGTA---GCAG-------------TGAAAATG.............................................................................................................................................................................................................................................................................................................................................................	25	1	3.00	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	2	0	0	0	0	0
......T---AACAAGGACTCGCT------TCTCGACCCGGA...................................................................................................................................................................................................................................................................................................................................................................................................................	27	1	3.00	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
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......T---AACAAGGACTCGCT------TCTCGACCC......................................................................................................................................................................................................................................................................................................................................................................................................................	24	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....AT---AACAAGGACTCGCT------TCTC...........................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.........................................................TGGTAAGAGTA---GCAG-------------TGAAAATGCTAGC........................................................................................................................................................................................................................................................................................................................................................	28	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.................................................................................................................GAC--------------------------------------AAAA--------------C-------------------------------GGAAAGCGAAAATGATG................................................................................................................................................................................................................................	25	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.............AAGGACTCGCT------TCTCGACCCGGAG..................................................................................................................................................................................................................................................................................................................................................................................................................	24	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................................CTCATACAAATCCGAAG------------------------------------------TCTTA................................................................................................................	22	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0
.........................................................................................................................................................................................................................................................................................................................................................GGCAGCGAT---CTGGATGT---------------------G..........................................................	18	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................................................................TGT---------------------GTCGGTCGCCCAGCAGT..........................................	20	2	0.50	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0

droSim2

GGGCGAT---AACAAGGACTCGCT------TCTCGACCCGGAGCGTCCTAGTTCGTCTGGTAAGAGCA---GCAG-------------TGAAAATGGTAGCGGC---GGAAACGAC--------------------------------------AAAA--------------C-------------------------------GGAAAGCGAAAATGATGCCAC---------AACCGTT------------TCCGAATC--------CTCATCCAAATCCGAAG------------------------------------------TCTTGCCG---GGCAAAGGCAGCGAT---CTCGATGT---------------------GTCGGTCGCCCAGCAGGACGCAT---------TATCAGCA---ACTCT------TGAAT	Size	Hit Count	Total Norm	Total	M023 Head	M024 Male-body	M025 Embryo	M053 Female-body	O001 Testis	O002 Head	SRR553485 Ovary	SRR553486 Ovary	SRR553487 Ovary	SRR553488 Ovary	SRR618934 Ovary	V044 Embryo	SRR902008 Ovary	SRR902009 Testis	SRR1275487 Male larvae	SRR1275485 Male prepupae	SRR1275483 Male prepupae
..............................................CCTAGTTCGTCTGGTAAGAGCA---GCAG-------------T....................................................................................................................................................................................................................................................................................................................................................................	27	1	2.00	2	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................GAAG------------------------------------------TCTTGCCG---GGCA......................................................................................................	16	1	1.00	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
............................................................................................................................................................................................................................................................................................................................................................................T---------------------GTCGGTCGCCCAGCAGGACGCAT---------T..........................	25	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0
...........................................................................................................................................................................................................................................................................................................................................................................GT---------------------GTCGGTCGCCCAGCAGGA.........................................	20	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
.............................................TCCTAGTTCGTCTGGTAAGAGC..........................................................................................................................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................CATCCAAATCCGAAG------------------------------------------TCTTGCCG---GGC.......................................................................................................	26	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................................................................................................................GCGAT---CTCGATGT---------------------GTCGGTCG...................................................	21	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0
................................................................................................................................................................................................................................................................................................................................................................................................................AGGACGCAT---------TATCAGCA---ACTT............	21	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0
...................................................................A---GCAG-------------TGAAAATGGTAGCGGC---..................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0
.....................................CCGGAGCGTCCTAGTTCGTCTGGC................................................................................................................................................................................................................................................................................................................................................................................................	24	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................................................................TGT---------------------GTCGGTCGCCCAGCAG...........................................	19	1	1.00	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0
.........................................AGCGTCCTAGTTCGTCTGGTAAGAGC..........................................................................................................................................................................................................................................................................................................................................................................................	26	1	1.00	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................................................G------------------------------------------TCTTGCCG---GGCAAA....................................................................................................	15	2	0.50	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0

droSec2

GGGCGAT---AACAAGGACTCGCT------TCTCGACCCGGAGCGTCCTAGTTCGTCTGGTAAGAGCA---GCAG-------------TGAAAATGGTAGCGGC---GGAAACGAC--------------------------------------AAAA--------------C-------------------------------GGAAAGCGAAAATGATGCCAC---------AACCGTT------------TCCGAATC--------CTCATCCAAATCCGAAG------------------------------------------TCTTGCCG---GGCAAAGGCAGCGAT---CTCGATGT---------------------GTCGGTCGCCCAGCAGGACGCAT---------TATCAGCA---ACTCT------TGAAT	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
..............................................CCTAGTTCGTCTGGTAAGAG...........................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	1
.....................................................................................................................................................................................................................................................................................AATCCGAAG------------------------------------------TCTTGCCG---GGC.......................................................................................................	20	1	1.00	1	0	0	1	0

droYak3

GGGCGAT---AACAAGGACTCGCT------TCTCGACCCGGAGCGCCCCAGTTCGTCTGGTAAGAGCA---GCAG-------------TGAAAATGGCAACGGC---GGCAACGAC--------------------------------------AAAA--------------C-------------------------------GGAAAGCGAAAAAGATGCTAC---------ATCCGTT------------ACCGAATC--------CTCATCCAAATCCGAAG------------------------------------------TCTTGCCG---GGCAAGGGCAGCGAT---CTCGATGT---------------------GCCGGTCGCCCAGCAGAACGCAT---------CATCAGCA---ACTCC------TAAAT	Size	Hit Count	Total Norm	Total	M026 Head	M043 Female-body	M056 Embryo	V046 Embryo	V052 Head	V058 Head	V120 Male-body	SRR1275488 Male larvae	SRR1275486 Male prepupae	SRR1275484 Male prepupae	GSM1528802 follicle cells
............CAAGGACTCGCT------TCTCGACCCGGA...................................................................................................................................................................................................................................................................................................................................................................................................................	24	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
.....................GCT------TCTCGACCCGGAGCGCCCCAGTT........................................................................................................................................................................................................................................................................................................................................................................................................	26	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................................................................................................................................................................AGCGAT---CTCGATGT---------------------GCCGGTC....................................................	21	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................TCCGAAG------------------------------------------TCTTGCCG---GGCAAGGGC.................................................................................................	24	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0
....GAT---AACAAGGACTCGCT------TCT............................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
..........AACAAGGACTCGCT------TCTCGACCCGGAGC.................................................................................................................................................................................................................................................................................................................................................................................................................	28	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0
...............GGACTCGCT------TCTCGACCCGG....................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0

droEre2

GGGCGAT---AACAAGGACTCGCT------TCTCGACCCGGAGCGTCCCAGTTCGTCTGGTAAGAGCA---GCAG-------------TGAAAATGGCAGCGGC---GGCAACGAC--------------------------------------AAAA--------------C-------------------------------GGAAAGCGAAAAAGATGCCAC---------ATCCGTT------------ACCGAATC--------CTCATCCAAATCCGAAG------------------------------------------TCTTGCCG---GGCAAAGGCAGCGAT---CTCGATGA---------------------GCCGGTCGCCCAGCAGGACGCAT---------CATCAGCA---ACTCC------TGAAT	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
.............AAGGACTCGCT------TCTCGACCCGGAGC.................................................................................................................................................................................................................................................................................................................................................................................................................	25	1	2.00	2	0	1	0	1	0	0	0
..............................................................................................................................................................................................................................CAC---------ATCCGTT------------ACCGAATC--------CTC.............................................................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0	0
..................................GACCCGGAGCGTCCCAGTTCGTCTGGCT...............................................................................................................................................................................................................................................................................................................................................................................................	28	1	1.00	1	0	0	0	0	0	1	0
..........AACAAGGACTCGCT------TCTCGACCCGGAGC.................................................................................................................................................................................................................................................................................................................................................................................................................	28	1	1.00	1	0	0	0	0	0	1	0
...............GGACTCGCT------TCTCGACCCGGAGCGTC..............................................................................................................................................................................................................................................................................................................................................................................................................	26	1	1.00	1	0	0	0	0	0	1	0
...............................................................................................................................................................................................................................................................CGAATC--------CTCATCCAAATCCGA.................................................................................................................................................................	21	1	1.00	1	1	0	0	0	0	0	0
...............GGACTCGCT------TCTCGACCCGGAGC.................................................................................................................................................................................................................................................................................................................................................................................................................	23	1	1.00	1	0	0	0	0	1	0	0
..............AGGACTCGCT------TCTCGACCCGGAGCGTCC.............................................................................................................................................................................................................................................................................................................................................................................................................	28	1	1.00	1	0	0	0	0	1	0	0
...........................................................GTAAGAGCA---GCAG-------------TGAAAAT..............................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	1	0
.............................................................................................................CAACGAC--------------------------------------AAAA--------------C-------------------------------GGAAAGC..........................................................................................................................................................................................................................................	19	1	1.00	1	1	0	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................................................GCAGCGAT---CTCGATGA---------------------GCCGG......................................................	21	1	1.00	1	0	0	0	0	0	1	0

dp5

TGGCGAC---AACAAGGACTCGC---------TCGATCCGGAGCGTCCCAGTTCGTCGGGTAAGACCATCAGCAG-------------CACAAGCAGCAGCGGCGATGGAAACGGCACCGAAGCGGCCACCAAAGC---TAAAGCTAAAGCGAA--TGCTAATGCTA---------------------------------------------------ATGCCAG---------CAGCGAC------------CTGGAATCGTCGTCGTCTG-----CCCCGA---------------------------------------------------CTGAGGGCAATGGCAGCGCC---GTCGAGGC---------------------GACCGCCGATCAGCAG---CCAG---------CTGAAGCA---CTCCC------AGAAT	Size	Hit Count	Total Norm	Total	M022 Male-body	M040 Female-body	M059 Embryo	M062 Head	V043 Embryo	V051 Head	V112 Male-body	SRR902010 Ovary	SRR902011 Testis	SRR902012 CNS imaginal disc
......C---AACAAGGACTCGC---------TCGATCC......................................................................................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0	0	0	0	0
................GACTCGC---------TCGATCCGGAGC.................................................................................................................................................................................................................................................................................................................................................................................................................	19	1	1.00	1	0	1	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................................................................................CGCC---GTCGAGGC---------------------GACCGCCGATCAG..............................................	25	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................CCGA---------------------------------------------------CTGAGGGCAATGGCAGCGCC---........................................................................................	24	1	1.00	1	0	0	0	0	1	0	0	0	0	0
..................................................................................................................................................................................................................................................................................................................................................................................................GACCGCCGATCAGCAG---CCAG---------CTGA.......................	24	1	1.00	1	0	0	0	0	1	0	0	0	0	0
................................................................................................GCAGCGGCGATGGAAACGGCACC......................................................................................................................................................................................................................................................................................................................................	23	1	1.00	1	0	0	1	0	0	0	0	0	0	0
............................................................................................AGCAGCAGCGGCGATGGAC..............................................................................................................................................................................................................................................................................................................................................	19	2	0.50	1	0	1	0	0	0	0	0	0	0	0
............................................................................................AGCAGCAGCGGCGATGGACT.............................................................................................................................................................................................................................................................................................................................................	20	6	0.50	3	0	3	0	0	0	0	0	0	0	0

droPer2

TGGCGAC---AACAAGGACTCGC---------TCGATCCGGAGCGTCCCAGTTCGTCGGGTAAGACCATCAGCAG-------------CACAAGCAGCAGCGGCGATGGAAACGGCACCGAAGCGGCCACCAAAGC---TAAAGCTAAAGCGAA--TGCTAATGCTA---------------------------------------------------ATGCCAG---------CAGCGAC------------CTGGAATCGTCGTCGTCTG-----CCCCGA---------------------------------------------------CTGAGGGCAATGGCAGCGCC---GTCGAGGC---------------------GACCGCCGATCAGCAG---CCAG---------CTGAAGCA---CTCCC------AGAAT	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
......C---AACAAGGACTCGC---------TCGATCC......................................................................................................................................................................................................................................................................................................................................................................................................................	21	1	4.00	4	4	0	0	0	0	0
..........AACAAGGACTCGC---------TCGATCC......................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	4.00	4	4	0	0	0	0	0
................GACTCGC---------TCGATCCGGAGC.................................................................................................................................................................................................................................................................................................................................................................................................................	19	1	2.00	2	2	0	0	0	0	0
...............GGACTCGC---------TCGATCCGGAG..................................................................................................................................................................................................................................................................................................................................................................................................................	19	1	1.00	1	1	0	0	0	0	0
...................................ATCCGGAGCGTCCCAGTTCGTCGGGC................................................................................................................................................................................................................................................................................................................................................................................................	26	1	1.00	1	1	0	0	0	0	0
........................................................................................................................................................................................................................................................................................CGA---------------------------------------------------CTGAGGGCAATGGCAGCGCC---........................................................................................	23	1	1.00	1	0	0	1	0	0	0
......................................CGGAGCGTCCCAGTTCGTCGGGCC...............................................................................................................................................................................................................................................................................................................................................................................................	24	1	1.00	1	0	0	0	0	0	1
.................ACTCGC---------TCGATCCGGAGC.................................................................................................................................................................................................................................................................................................................................................................................................................	18	1	1.00	1	1	0	0	0	0	0

droWil2

TGGCGAT---AATAAGGACTCGC---------TTGATCCGGAGCGTCCCAGTTCGTCGGGTAAGAAGA---AGAC---CGAA-ATCGTCGAAAGCGGAACTGGC---GGCA----C-----------------------AAAAGCTAATAATAA--TAATAAT---------AAAA------------------------------------------AAGCCAA---------TGAGGAC------------CTGAGCTCGTC-----------------GA---------------------------------------------------CTGTGGGCAATGGCAGCGCC---GTCGAGGC---------------------TG---------------GTGCATCAGTTGGCAATGAAGCT---CTCGC------CGAAT	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
....GAT---AATAAGGACTCGC---------TTGATC.......................................................................................................................................................................................................................................................................................................................................................................................................................	22	1	3.00	3	0	1	0	2	0
.......................................................................................................................................................................................................................................................................C-----------------GA---------------------------------------------------CTGTGGGCAATGGCAGCGCC---........................................................................................	23	1	3.00	3	0	1	0	2	0
....GAT---AATAAGGACTCGC---------TTGATCCGGAGC.................................................................................................................................................................................................................................................................................................................................................................................................................	28	1	2.00	2	0	0	2	0	0
.........................................................................................................................................................................................................................................................................................GA---------------------------------------------------CTGTGGGCAATGGCAGCGCC---GT......................................................................................	24	1	1.00	1	0	0	0	1	0
................................................................................................................................................................................................................................................................AGCTCGTC-----------------GA---------------------------------------------------CTGTGGGCAATGGCAGC..............................................................................................	27	1	1.00	1	0	0	1	0	0
..................................................GTTCGTCGGGTAAGAAGA---A.....................................................................................................................................................................................................................................................................................................................................................................................	19	1	1.00	1	0	0	1	0	0
....................................................................................................................................................................................................................................................................CGTC-----------------GA---------------------------------------------------CTGTGGGCAATGGC.................................................................................................	20	1	1.00	1	0	0	0	1	0
.............AAGGACTCGC---------TTGATCCGGAGCGTCC.............................................................................................................................................................................................................................................................................................................................................................................................................	26	1	1.00	1	0	0	1	0	0
...........ATAAGGACTCGC---------TTGATC.......................................................................................................................................................................................................................................................................................................................................................................................................................	18	1	1.00	1	0	0	0	1	0
.................................................................................................................................................................................................................................................................GCTCGTC-----------------GA---------------------------------------------------CTGTGGGCAATGGC.................................................................................................	23	1	1.00	1	0	0	0	1	0
.............................................................................................................................................................................................................................................................CTGAGCTCGTC-----------------GA---------------------------------------------------CTGTGGGCA......................................................................................................	22	1	1.00	1	0	0	0	1	0
......T---AATAAGGACTCGC---------TTGATCCGGAGC.................................................................................................................................................................................................................................................................................................................................................................................................................	26	1	1.00	1	0	0	0	1	0
.........................................................................................................................................................................................................................................................................................GA---------------------------------------------------CTGTGGGCAATGGCAGCGCC---........................................................................................	22	1	1.00	1	0	0	0	1	0
............TAAGGACTCGC---------TTGATCCGGAGC.................................................................................................................................................................................................................................................................................................................................................................................................................	23	1	1.00	1	0	0	0	1	0
.....................................CCGGAGCGTCCCAGTTCGTCGGGCTT..............................................................................................................................................................................................................................................................................................................................................................................................	26	1	1.00	1	1	0	0	0	0

droMoj3

TGGCGAC---AACAAGGACTCAC---------TAGATCCAGAGCGTCCCAGTTCGTCGGGTAAGAGCG---A----------------TAAGTGCGATAACAGC---GATAA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
................GACTCAC---------TAGATCCAGAGC.................................................................................................................................................................................................................................................................................................................................................................................................................	19	1	2.00	2	0	0	2	0	0	0
..............AGGACTCAC---------TAGATCCAGAG..................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	1	0	0	0	0	0
.....................................CCAGAGCGTCCCAGTTCGTCGGGTA...............................................................................................................................................................................................................................................................................................................................................................................................	25	1	1.00	1	0	1	0	0	0	0
....................CAC---------TAGATCCAGAGCGTCCC............................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	1	0
..GCGAC---AACAAGGACTCAC---------TAGATC.......................................................................................................................................................................................................................................................................................................................................................................................................................	24	1	1.00	1	1	0	0	0	0	0
........................................GAGCGTCCCAGTTCGTCGGGCT...............................................................................................................................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	1

droGri2

CGGCGAT---AATAAGGACTCGC---------TCGATCCGGAGCGTCCCAGTTCGTCGGGTAAGAGCG---ATAAGGCCGAAAA----TCATAATAATAGCAGC---GGAATCAATT------CTACTACTACTACTACTACTACTACTACTAC--TACCAATACCAATACCAATAAAGCCAA---------CG---AGC------------------------A---------ATCCGT---------------CAACTA--------CTCCTCCAACTCGGTCG------------------------------------------------AG---GGCAATGGCAGCGATGCAGTCGACGTTGACGTTGACGCCACGGCGGCTGCGGCAGCCGTGCCAAACGAAT---------CGGCAACAAAATCAAC------CAAAT	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
.........................................................................................................................................................C--TACCAATACCAATACCA................................................................................................................................................................................................................................................................................	18	5	0.20	1	1	0

-6.7	-6.7	-6.5	-6.5

dan_957

scaffold_12943:4162663-4162813 +

Candidate

Unknown

Predicted structure

Flybase annnotation

Sense Strand Reads

Anti-sense strand reads

Re-alignment of all predicted orthologs

Re-alignment of all predicted orthologs with sRNA reads